TB-Profiler result

Run: ERR4818340
Summary

Run ID: ERR4818340

Sample name:

Date: 01-04-2023 15:30:16

Number of reads: 200679

Percentage reads mapped: 97.08

Strain: lineage5.3

Drug-resistance: Sensitive

Download CSV Download TXT Download PDF Download JSON
Drug resistance: This table reports drug-resistance associated mutations found in known resistance genes
Drug Resistance Supporting mutations
Lineage Table: The lineage is inferred by analysing lineage specific SNPs
Lineage Family Main Spoligotype RDs Frequency
lineage5.3 West-Africa 1 AFRI_2;AFRI_3 RD711 1.0
Drug resistance-Associated Mutations: This table reports mutations found in candidate resistance genes which have been associated with drug resistance
Gene Chromosome position Mutation Type Estimated fraction Drugs
Non-Associated Mutations: This table reports mutations found in candidate resistance genes which have not been associated with drug resistance
Gene Chromosome position Mutation Type Estimated fraction
gyrB 6446 p.Ala403Ser missense_variant 1.0
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9143 c.1842T>C synonymous_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
gyrA 9566 c.2265C>T synonymous_variant 1.0
fgd1 491742 c.960T>C synonymous_variant 1.0
mshA 575284 c.-64C>A upstream_gene_variant 0.5
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 775764 p.Val906Ala missense_variant 0.25
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpL5 776339 p.His714Gln missense_variant 0.25
mmpL5 776371 p.Gly704Cys missense_variant 0.29
mmpL5 778213 p.Ala90Pro missense_variant 0.33
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rpsL 781763 c.204C>A synonymous_variant 0.4
rplC 800793 c.-16G>C upstream_gene_variant 1.0
fbiC 1302899 c.-32A>G upstream_gene_variant 1.0
Rv1258c 1406946 p.Ala132Asp missense_variant 0.25
inhA 1673338 c.-864G>A upstream_gene_variant 1.0
fabG1 1673343 c.-96delC upstream_gene_variant 0.33
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2101921 c.1122G>A synonymous_variant 1.0
ndh 2102299 p.Met248Ile missense_variant 0.4
ndh 2102846 p.Gly66Glu missense_variant 0.25
ndh 2103112 c.-70G>T upstream_gene_variant 1.0
katG 2154724 p.Arg463Leu missense_variant 1.0
PPE35 2167675 p.Leu980Met missense_variant 0.67
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2168255 c.2358G>A synonymous_variant 0.4
PPE35 2170073 c.540C>A synonymous_variant 0.22
PPE35 2170643 c.-31G>A upstream_gene_variant 0.33
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289338 c.-97A>G upstream_gene_variant 0.29
pncA 2290020 c.-780delC upstream_gene_variant 0.29
pncA 2290062 c.-821G>A upstream_gene_variant 1.0
kasA 2518132 c.18C>T synonymous_variant 1.0
eis 2715036 c.297G>T synonymous_variant 0.25
ahpC 2726531 p.Asp113Glu missense_variant 0.4
pepQ 2859519 c.900G>A synonymous_variant 0.4
ribD 2987177 c.339A>G synonymous_variant 0.33
Rv2752c 3064931 c.1261C>T synonymous_variant 0.67
thyA 3074621 c.-150T>A upstream_gene_variant 0.5
ald 3087081 p.Gly88Arg missense_variant 1.0
ald 3087084 c.266delA frameshift_variant 1.0
ald 3087184 c.368_373delCCGACG disruptive_inframe_deletion 1.0
ald 3087879 p.Arg354Trp missense_variant 0.33
Rv3083 3449012 p.Pro170Leu missense_variant 1.0
Rv3083 3449910 c.1407C>T synonymous_variant 0.67
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
whiB7 3568462 p.Gln73Leu missense_variant 0.25
whiB7 3568519 p.Ala54Asp missense_variant 0.22
fbiA 3640394 c.-149G>A upstream_gene_variant 1.0
fbiB 3642285 p.Leu251Val missense_variant 0.18
alr 3840367 p.Pro352Ser missense_variant 1.0
rpoA 3877590 c.918G>T synonymous_variant 0.4
rpoA 3877737 c.771G>C synonymous_variant 0.25
rpoA 3877743 c.765T>C synonymous_variant 0.25
rpoA 3877748 c.760C>T synonymous_variant 0.25
rpoA 3877764 c.744C>G synonymous_variant 0.4
rpoA 3877770 c.738A>G synonymous_variant 0.4
rpoA 3877776 c.732T>C synonymous_variant 0.4
rpoA 3877782 c.726T>C synonymous_variant 0.5
rpoA 3877797 c.711G>A synonymous_variant 0.5
rpoA 3877803 c.705G>C synonymous_variant 0.5
ddn 3986987 c.144G>T synonymous_variant 1.0
ddn 3987180 p.Asp113Asn missense_variant 1.0
clpC1 4039116 p.Lys530Met missense_variant 1.0
clpC1 4040824 c.-120C>T upstream_gene_variant 1.0
panD 4044171 p.Asp37Glu missense_variant 1.0
panD 4044297 c.-16C>A upstream_gene_variant 0.4
embC 4239843 c.-20A>C upstream_gene_variant 1.0
embC 4240671 p.Thr270Ile missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244220 c.988C>T synonymous_variant 1.0
embA 4244635 p.Val468Ala missense_variant 1.0
embA 4244768 p.Glu512Asp missense_variant 0.29
embA 4245090 p.Gly620Ser missense_variant 0.5
embA 4245147 p.Pro639Ser missense_variant 1.0
embB 4247646 p.Glu378Ala missense_variant 1.0
aftB 4267168 p.Gln557Glu missense_variant 0.4
aftB 4267425 p.Gly471Glu missense_variant 0.22
aftB 4268171 c.666G>C synonymous_variant 0.67
aftB 4268179 c.658T>C synonymous_variant 0.67
aftB 4268183 c.654A>T synonymous_variant 0.67
aftB 4268194 p.Leu215Val missense_variant 0.4
aftB 4268207 c.630C>G synonymous_variant 0.4
aftB 4268213 c.624T>C synonymous_variant 0.33
aftB 4268219 c.618C>G synonymous_variant 0.29
aftB 4268228 c.609C>G synonymous_variant 0.29
aftB 4268258 c.579C>T synonymous_variant 0.22
ubiA 4269387 p.Glu149Asp missense_variant 1.0
aftB 4269606 c.-770T>C upstream_gene_variant 1.0
ethA 4327103 p.Gly124Asp missense_variant 1.0
ethA 4327532 c.-59G>T upstream_gene_variant 0.4
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
whiB6 4338620 c.-99G>A upstream_gene_variant 0.33
gid 4407588 c.615A>G synonymous_variant 1.0